Cavity programs: Difference between revisions
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[https://loschmidt.chemi.muni.cz/caverweb/ CAVER Web], published in 2019<ref name="caverweb">PMID: 31114897</ref>, provides web access to CAVER with a straightforward user interface. A starting point must be specified. CAVER attempts to make this easy for enzymes, using the catalytic residues. For non-enzymes, it is best if the user selects some amino acids (easily done from a sequence listing, although the numbering in the left column was wrong for 6zgi). As they are selected, their average position (the starting point) is displayed in JSmol. | [https://loschmidt.chemi.muni.cz/caverweb/ CAVER Web], published in 2019<ref name="caverweb">PMID: 31114897</ref>, provides web access to CAVER with a straightforward user interface. A starting point must be specified. CAVER attempts to make this easy for enzymes, using the catalytic residues. For non-enzymes, it is best if the user selects some amino acids (easily done from a sequence listing, although the numbering in the left column was wrong for 6zgi). As they are selected, their average position (the starting point) is displayed in JSmol. | ||
Personal experience: After selecting Asn907 in all 3 chains of 6zgi (these encircle the deepest part of the membrane-proximal cavity), and after >10 min of processing, after processing finished, was unable to display the results due to "Proxy Error - error reading from remote server". Same result for a different job. Same result in Chrome and Firefox. [[User:Eric Martz|Eric Martz]] 20:08, 18 December 2020 (UTC) | Personal experience: After selecting Asn907 in all 3 chains of 6zgi (these encircle the deepest part of the membrane-proximal cavity), and after >10 min of processing, after processing finished, was '''unable to display the results''' due to "Proxy Error - error reading from remote server". Same result for a different job. Same result in Chrome and Firefox. [[User:Eric Martz|Eric Martz]] 20:08, 18 December 2020 (UTC) | ||
==Jmol== | ==Jmol== | ||
